Variant report
| Variant | rs17024338 |
|---|---|
| Chromosome Location | chr2:101067435-101067436 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr2:101065530..101068470-chr2:101179201..101180858,2 | MCF-7 | breast: | |
| 2 | chr11:62608619..62609223-chr2:101067060..101067582,2 | Hela-S3 | cervix: | |
| 3 | chr2:101065517..101069142-chr2:101179392..101181432,3 | MCF-7 | breast: | |
| 4 | chr11:62607633..62609138-chr2:101067062..101068582,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000133316 | Chromatin interaction |
| ENSG00000115539 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:35)
| rs_ID | r2[population] |
|---|---|
| rs1052117 | 1.00[JPT][hapmap] |
| rs1114285 | 1.00[JPT][hapmap] |
| rs11676919 | 0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11686982 | 0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11692773 | 0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12616005 | 1.00[JPT][hapmap] |
| rs1401753 | 1.00[JPT][hapmap] |
| rs1533655 | 1.00[JPT][hapmap] |
| rs1589246 | 1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs17024346 | 0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17024431 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs2139402 | 1.00[JPT][hapmap] |
| rs2309846 | 1.00[JPT][hapmap] |
| rs2309854 | 0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2871351 | 0.89[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs2970997 | 1.00[JPT][hapmap] |
| rs2971007 | 1.00[JPT][hapmap] |
| rs4365485 | 0.81[EUR][1000 genomes] |
| rs4851325 | 0.95[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs4851327 | 0.95[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs4851332 | 1.00[JPT][hapmap] |
| rs4851333 | 1.00[JPT][hapmap] |
| rs57238210 | 0.89[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs59329710 | 0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6542968 | 1.00[JPT][hapmap] |
| rs6542969 | 1.00[JPT][hapmap] |
| rs6747613 | 1.00[JPT][hapmap] |
| rs6753993 | 1.00[JPT][hapmap] |
| rs72964183 | 0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs72964189 | 0.93[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7370665 | 0.90[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs7575538 | 1.00[JPT][hapmap] |
| rs7578708 | 1.00[JPT][hapmap] |
| rs7594904 | 1.00[JPT][hapmap] |
| rs7595492 | 1.00[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1007777 | chr2:100816913-101308914 | Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 30 gene(s) | inside rSNPs | diseases |
| 2 | nsv535844 | chr2:100816913-101308914 | Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 30 gene(s) | inside rSNPs | diseases |
| 3 | nsv582531 | chr2:100908508-101207639 | Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 20 gene(s) | inside rSNPs | diseases |
| 4 | nsv916792 | chr2:101021066-101525200 | Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 5 | nsv582532 | chr2:101029002-101531943 | Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 6 | nsv1011990 | chr2:101039956-101105648 | Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive region | 5 gene(s) | inside rSNPs | diseases |
| 7 | nsv834312 | chr2:101044438-101238166 | Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
